Notices and Revisions

Notices

Diana Lipscomb has written a basic manual for Winclada and it is available from her website.

It is near the bottom of the page you will find through this link:  Diana Lipscomb's page.

This is a very nice manual, and I am working with Diana to improve it.  Diana also has documentation for NONA there.

VERSION 1.0 OF WINCLADA IMMINENT!!!

Revisions

CURRENT VERSION 0.9.99i

THERE ARE MANY NEW ITEMS  SO READ THIS:

• The character diagnoser (UNEQUIS/DOSEQUIS) has been upgraded to include most of the functions available in the last versions of CLADOS.   This includes color-coded character distributions.
• Character optimizations can now be set by the user independently for each character.  This will be saved in the file when a matrix is saved (as the optmode statement, which will follow the proc/; statement).  Since the optmode statement is not supported by NONA, it MUST follow the proc /;  NOTE THAT IF YOU CHANGE CHARACTER OPTIMIZATION TO FAST OR SLOW OR UNAMBIG IN THE MAIN MENU, THIS WILL APPLY TO ALL CHARACTERS AND OVERRIDE ANY INDIVIDUAL SETTINGS.  SET YOUR DEFAULT FIRST, THEN CHANGE THEM FOR EACH CHARACTER.
• A "force" option is also available that will force nodes to alternative parsimonious optimzation, but only for individual characters.  This will be lost if you reoptimize or reset characters, and forced optimizations are NOT currently saved to the matrix file.  Forced optimzations are only valid for the CURRENT tree and will be lost if you move to another tree.  The main use of this option for now would be to produce an image (with metafiles) or a particular tree/character/optimization.
• The "bug" that produced incorrect tree display when an enhanced metafile was read by CorelDraw has been "fixed."  In fact, the bug is in CorelDraw and has to do with incorrectly implementing arcs - if you need to use CorelDraw to edit a tree metafile, save it as "Corel BAD" metafile.  Note that such metafiles will NOT be read correctly by other programs, such as Powerpoint, that correctly implement the arc function.
• Occasionally, in collapsed trees when a descendant node was directly in line with the ancestor node, the branch line would not be drawn bewteen the two.  This has been corrected.
• I have begun to implement color control for various items.   This is rudimentary (much more to come) and is available in the View menu in clados mode, at the bottom.  Note that these changes are not saved when you exit the program.
• Colors for character states by default are standardized to the commonly used colors for DNA for states 0-3 (A-T).  The next version will allow you to change defaults, don't worry.  In the emantime, you can change these on fly through the view menu, but they will not be saved.
• A new taxon display mode, called "lollipop" can be toggled from the view menu in clados mode.  The colors can be controlled from view-set tree colors.  Lollipop is available either in stadard or DOS EQUIS display mode.

Previous Versions:

VERSION 0.9.99c

A problem with file saves has been fixed.  If you have downloaded version 0.9.99a on December 15, you should upgrade to version 0.9.99c asap.

VERSION: 0.9.99b

A problem with saving matrices with titles that exceed 255 characters has been fixed.

VERSION: 0.9.99 (14 DECEMBER 1999).

Problems running the ratchet and ANALYZE procedures have been fixed.   If you have ver. 0.9.98, PLEASE upgrade to 0.9.99.  The problems were due to differences in file i/o and multithreading between DOS and Win32, which resulted in file buffer issues when creating a file and immediately spawning NONA.  This caused file corruption of procedure files in some cases; this has been completely fixed.  The ratchet and analyze now "wait" for NONA output and automatically load tree files when NONA finishes.  You may run up to 5 jobs simultaneously.

VERSION: 0.9.98 (7 December 1999).

Several fixes including problems in changing additivity of selected characters have been fixed.

New features including node frequency counting, collapsing of unsupported nodes, and automated ILD test and RATCHET analyses with NONA.

Documentation will be upgraded to reflect new features soon.

VERSION: 0.9.95a

The problem with printing "small trees" for some users is due to older versions of the dynamic library "comctl32.dll" that provides services such as the print dialog.  If you still experience problems printing, you may want to consider visiting the MICROSOFT site or the SOFTSEEK site below and upgrading your comtcl32.dll.  This is not a Winclada bug, and I cannot fix it.  It is a Windows version problem, but appears to be present on some systems with Windows98 as well as Windows95.

The comctl32.dll upgrade is the same for Windows 95/98/NT and can be downloaded at the following site:

SOFTSEEK DOWNLOAD SITE for comctl32.dll

Here is the experience of one Winclada user:

Version 0.9.95a:   (11 Oct 1999)

Small tree printing bug fixed (for many, not all; see above).   Interface improved for viewing trees; status line and standard save dialogs added.  Print output and emf (enhanced metafile) output made consistent.

Version 0.9.941

One bug fixed that could cause a sporadic miscalculation of CI, RI and information.  New option added for the mapping of homoplasious states (now the default) as opposed to homoplasious characters.  Open hashmarks now the default for homoplasious changes.  Colors can be changed through View-Hashmark menu.

Version 0.9.92 (Oct 4, 1999)

Fixed a bug that resulted in a crash if no trees were in ram and the "open tree file" dialog box was cancelled without opening a file.

Version 0.9.90-0.9.91 (Oct 1, Oct 3 1999): Initial version available for download.